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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACAAGTTCCACTCCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTGgtaagccttttcgcctgcattaattccggcatcgctgcaccgcatcttgctccaatccagccgctaatcttctcttacaaaacctgaatgacag

Basic information

species Zea mays
transcript GRMZM2G004528_T01
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G004528_T03 (Zea mays), 5'ss of exon 9
lower sequence: LOC_Os03g09250.3 (Oryza sativa), 5'ss of exon 8
-------------------------------------GACAAGTTCCACTCCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTGgtaagccttttcgcctgcattaattccggcatcgctgcaccgcatcttgctccaatccagccgctaatcttctcttac-----aaaacctgaatgacag-----
                                     || |||||||| |||||||| || ||||| |||||||| |||||||||||||||||||| || || ||    | |   |||||   | | | |       |      |  |      ||  | |  || || | ||  |       ||||   |  |    |     
TTGACTATGTTGTTGTTTCACTTGTTATCCTGTGCAGGAGAAGTTCCATTCCTTCCATCCAGTGGCTACCATCCTGAGCTACCTCACCAAGGCACCCCTTgtgagtgcataca--tgcatctgtactgcccattaaccgttatgttctttcatgatataccaactgatttacttatgtcacgaaaaattcgtctcctggaacag

upper sequence: GRMZM2G004528_T03 (Zea mays), 5'ss of exon 9
lower sequence: LOC_Os03g09250.2 (Oryza sativa), 5'ss of exon 9
GACAAGTTCCACTCCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTGgtaagccttttcgcctgcattaattccggcatcgctgcaccgcatcttgctccaatccagccgctaatcttctcttac-----aaaacctgaatgacag-----
|| |||||||| |||||||| || ||||| |||||||| |||||||||||||||||||| || || ||    | |   |||||   | | | |       |      |  |      ||  | |  || || | ||  |       ||||   |  |    |     
GAGAAGTTCCATTCCTTCCATCCAGTGGCTACCATCCTGAGCTACCTCACCAAGGCACCCCTTGTGAGTGCATACA--TGCATCTgtactgcccattaaccgttatgttctttcatgatataccaactgatttacttatgtcacgaaaaattcgtctcctggaacag

upper sequence: GRMZM2G004528_T03 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA08G14670.2 (Glycine max), 5'ss of exon 9
GACAAGTTCCACTCCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTGgtaagcct------tttcgcctgcattaattccg-gcatcgctgcaccgcatcttgctccaatccagccgctaatcttctcttacaaaacctgaatgacag
|  ||||||||||| |||||||| || || |||||||| || ||||| |||||||| || ||||||||  |      | |       | |  ||| | | ||   | || | |  |||     |||     |        |     ||||    | ||| ||||
GGAAAGTTCCACTCATTCCACCCAGTTGCGACCATCCTCAGTTACCTGACCAAGGCCCCTCTGgtaagtataatgtatctgattcataattgttcagtgaattttttcatcccccctttgattaattttctcaaattgtgtgaacaacaattattaaattacag

upper sequence: GRMZM2G004528_T03 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA05G31450.4 (Glycine max), 5'ss of exon 6
GACAAGTTCCACTCCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTGgtaagccttttcgcctgcattaattccggcatcgctgcaccgcatcttgc-tccaatccagccgctaatcttctcttacaaaacc--tgaatgacag
|  || |||||||| |||||||| || || ||||||||||| ||||| |||||||| || |||||||| ||  |       ||| ||    |  ||  || |     |||  | |     ||      |||  ||||   | | ||    | ||| ||||
GGAAAATTCCACTCATTCCACCCAGTTGCGACCATCCTTAGTTACCTGACCAAGGCCCCTCTGgtaagtctaatactaccgattcataattgt-tcaatgaattaattctctcatttccccctttaattaaatttctgaaatacaattattaaattacag

upper sequence: GRMZM2G004528_T03 (Zea mays), 5'ss of exon 9
lower sequence: Vv07s0031g00920.t01 (Vitis vinifera), 5'ss of exon 9
GACAAGTTCCACTCCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTGgtaagccttttcgcctgcatt----aattccggcatcgctgcaccgcatcttgctccaatccagccgctaatcttctctt---acaaaacctgaatgacag
|||||||| || ||||||||||| || ||||||||||| || |||||||||||||| || |||||||| || |   | ||||||    |  |      | | ||     |  | |  || | ||   ||  ||||| |   ||   ||   |   |||  ||| 
GACAAGTTTCATTCCTTCCACCCAGTTGCCACCATCCTCAGTTACCTCACCAAGGCCCCTCTGgtaagtctctctacatgcatttcaaagctttaaacttggtgggtt-ccccatattctattctcccctttaatcgttgatttggacttgataagaaccacac

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|13388668|gb|BG462341.1|BG462341
EST:     CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTG                         GTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
genomic: CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTGgtaagccttt ... tgaatgacagGTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
EST: gi|6022235|gb|AW067163.1|AW067163
EST:     CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTG                         GTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
genomic: CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTGgtaagccttt ... tgaatgacagGTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
EST: gi|6021982|gb|AW066910.1|AW066910
EST:     CCTTCCACCCGGTGGCCNCCATCCTTAGCTACCTCACCAAGGCACCNCTG                         GTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
genomic: CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTGgtaagccttt ... tgaatgacagGTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
EST: gi|110941538|gb|EE161695.1|EE161695
EST:     CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTG                         GTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
genomic: CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTGgtaagccttt ... tgaatgacagGTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
EST: gi|110217273|gb|EC899171.1|EC899171
EST:     CTTTCCACCCGGTGGCCACCATCCTTAGGTACCTCACCAAGGCACCACTG                         GTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
genomic: CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTGgtaagccttt ... tgaatgacagGTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
EST: gi|13388670|gb|BG462342.1|BG462342
EST:     CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTG                         GTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCG
genomic: CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTGgtaagccttt ... tgaatgacagGTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCG
EST: gi|6022029|gb|AW066957.1|AW066957
EST:     CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTG                         GTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
genomic: CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTGgtaagccttt ... tgaatgacagGTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
EST: gi|16919889|gb|BM074405.1|BM074405
EST:     CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTG                         GTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
genomic: CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTGgtaagccttt ... tgaatgacagGTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
EST: gi|6022307|gb|AW067235.1|AW067235
EST:     CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTG                         GTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
genomic: CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTGgtaagccttt ... tgaatgacagGTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
EST: gi|6021766|gb|AW066694.1|AW066694
EST:     CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTG                         GTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
genomic: CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTGgtaagccttt ... tgaatgacagGTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
EST: gi|71756431|gb|DR954368.1|DR954368
EST:     CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTG                         GTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
genomic: CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTGgtaagccttt ... tgaatgacagGTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
EST: gi|91871596|gb|EB401553.1|EB401553
EST:     CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTG                         GTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
genomic: CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTGgtaagccttt ... tgaatgacagGTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
EST: gi|71771141|gb|DR969078.1|DR969078
EST:     CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTG                         GTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
genomic: CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTGgtaagccttt ... tgaatgacagGTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
EST: gi|6022274|gb|AW067202.1|AW067202
EST:     CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTG                         GTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
genomic: CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTGgtaagccttt ... tgaatgacagGTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
EST: gi|6022096|gb|AW067024.1|AW067024
EST:     CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTG                         GTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
genomic: CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTGgtaagccttt ... tgaatgacagGTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
EST: gi|32854168|gb|CD993849.1|CD993849
EST:     CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTG                         GTTCCGCCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
genomic: CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTGgtaagccttt ... tgaatgacagGTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
EST: gi|149071426|gb|EE159821.2|EE159821
EST:     CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTG                         GTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGGGATG
genomic: CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTGgtaagccttt ... tgaatgacagGTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
EST: gi|13515776|gb|BG518052.1|BG518052
EST:     CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTG                         GTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
genomic: CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTGgtaagccttt ... tgaatgacagGTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
EST: gi|13515973|gb|BG518249.1|BG518249
EST:     CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTG                         GTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
genomic: CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTGgtaagccttt ... tgaatgacagGTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
EST: gi|60397539|gb|DN230355.1|DN230355
EST:     CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTG                         GTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
genomic: CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTGgtaagccttt ... tgaatgacagGTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
EST: gi|148952105|gb|EC897897.2|EC897897
EST:     CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTG                         GTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
genomic: CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTGgtaagccttt ... tgaatgacagGTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
EST: gi|21621348|gb|BQ619354.1|BQ619354
EST:     CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTG                         GTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
genomic: CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTGgtaagccttt ... tgaatgacagGTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
EST: gi|6021614|gb|AW066542.1|AW066542
EST:     CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTG                         GTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
genomic: CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTGgtaagccttt ... tgaatgacagGTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
EST: gi|32854394|gb|CD994075.1|CD994075
EST:     CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTG                         GTTCCGCCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
genomic: CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTGgtaagccttt ... tgaatgacagGTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
EST: gi|148928580|gb|EC873008.2|EC873008
EST:     CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTG                         GTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
genomic: CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTGgtaagccttt ... tgaatgacagGTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
EST: gi|148936902|gb|EC881051.2|EC881051
EST:     CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTG                         GTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG
genomic: CCTTCCACCCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTGgtaagccttt ... tgaatgacagGTTCCACCCGGCACACCGGTGGTGAACGCTCTTGCAAAGCAGAGGGCGATG